User: david.mas

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Posts by david.mas

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Comment: C: Problem when transforming Platypus vcf to VRanges
... Oh okay, thanks! EDIT: Just got the updated version (1.27.2) from bioconductor devel, problem solved! Thanks!! ...
written 11 months ago by david.mas0
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Comment: C: Problem when transforming Platypus vcf to VRanges
... Sorry but still couldn't transform the VCF > dat = readVcf("C:/Users/dmas/Documents/R/win-library/3.5/VariantAnnotation/extdata/chr22.vcf") > class(dat) [1] "CollapsedVCF" attr(,"package") [1] "VariantAnnotation" > as(dat,"VRanges") Error in end(ranges)[!is.na(meta$END)] <- meta$END[!is. ...
written 11 months ago by david.mas0
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Problem when transforming Platypus vcf to VRanges
... I got vcf files from Platypus variant caller. When I try to import them into R and the VariantAnnotation format VRanges I get the error message: test = readVcf(path) as(object = test,Class = "VRanges") Error in end(ranges)[!is.na(meta$END)] <- meta$END[!is.na(meta$END)] : invalid subscript typ ...
variantannotation vcf readvcf vranges written 11 months ago by david.mas0 • updated 11 months ago by Michael Lawrence11k

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